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Article: Rhizospheric soil metabarcoding analysis of Alnus nepalensis from Darjeeling hills reveals the abundance of nitrogen-fixing symbiotic microbes

Sen, Gargi / Sarkar, Indrani / Chhettri, Saroja / Kar, Pallab / Roy, Ayan / Sen, Arnab / Bhattacharya, Malay

Journal of forest research. 2022 Mar. 04, v. 27, no. 2

2022

Abstract: Actinorhizal plants are employed as successional plants for ecological restoration mainly due to their nitrogen-fixing ability. Alnus nepalensis or Nepali alder of Darjeeling hills is one of the potential plants used for agroforestry and known for its ... ...

Abstract	Actinorhizal plants are employed as successional plants for ecological restoration mainly due to their nitrogen-fixing ability. Alnus nepalensis or Nepali alder of Darjeeling hills is one of the potential plants used for agroforestry and known for its symbiotic association with an actinobacterium, Frankia. In this study, we performed a comparative16S rRNA amplicon analysis among six soil samples of Alnus rhizosphere and Non-rhizosphere of different altitudes of Darjeeling hills. Bioinformatics analyses were performed through the MG-RAST web server. Results revealed a set of 32 core bacterial genera among both rhizosphere and non-rhizosphere. Interestingly, Alnus rhizospheric soil samples were more populated with nitrogen-fixing taxa than non-rhizospheric or bulk soil. Nitrogen-fixing bacteria like Frankia and Cyanobacteria may play an important synergistic role in the proper growth and developmental stages of these plants. They are crucial for increasing the nitrogen amount of the soil through nitrogen fixation and gradually help in increasing the soil fertility and thus help in the proper progression of Alnus through the seral stages of succession. Nonrhizospheric soil samples were having a distinct population of other soil bacteria like Streptomyces, Rubrobacter, and Xanthomonas with higher Alpha diversity (54.14) than Alnus rhizospheric soil (42.18). This result was also validated by the rare fraction curve, which indicated more biodiversity in Non-rhizospheric soil rather than Alnus rhizosphere.
Keywords	Alnus nepalensis ; Cyanobacteria ; DNA barcoding ; Frankia ; Internet ; Rubrobacter ; Streptomyces ; Xanthomonas ; agroforestry ; bioinformatics ; ecological restoration ; forests ; nitrogen ; nitrogen fixation ; research ; rhizosphere ; soil ; soil fertility ; species diversity
Language	English
Dates of publication	2022-0304
Size	p. 106-112.
Publishing place	Taylor & Francis
Document type	Article
ZDB-ID	2104467-3
ISSN	1610-7403 ; 1341-6979
ISSN (online)	1610-7403
ISSN	1341-6979
DOI	10.1080/13416979.2022.2037813
Database	NAL-Catalogue (AGRICOLA)

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Article: Synthesis of silver nanoparticles using underutilized fruit Baccaurea ramiflora (Latka) juice and its biological and cytotoxic efficacy against MCF-7 and MDA-MB 231 cancer cell lines

Banerjee, Swarnendra / Islam, Shehnaz / Chattopadhyay, Ansuman / Sen, Arnab / Kar, Pallab

SAAB South African journal of botany. 2022 Mar., v. 145

2022

Abstract: In modern science, nanotechnology is the most current area of research. Due to its high surface-to-volume ratio nanoparticles have various biomedical applications. In the present study, we have described the eco-friendly biogenic synthesis of silver ... ...

Abstract	In modern science, nanotechnology is the most current area of research. Due to its high surface-to-volume ratio nanoparticles have various biomedical applications. In the present study, we have described the eco-friendly biogenic synthesis of silver nanoparticles from AgNO₃ into AgNPs using underutilized fruit Baccaurea ramiflora (Latka) juice. B. ramiflora is an underutilized fruit with a high nutritious value under the family Phyllantheceae. During AgNP synthesis, visualization of solution color changes from yellowish to reddish-brown partially confirms the presence of AgNPs. The surface morphology, size and stability of synthesized silver nanoparticles were determined by SEM, FESEM, HRTEM, EDX, XRD, and DLS. Furthermore, antioxidant efficacy and antimicrobial effectivity were determined by using both gram-positive and gram-negative bacteria. To know the anticancer effects, MTT assay was done on two human breast cancer cell lines and from this study, dose-dependent cytotoxicity of AgNPs was found in the above cell lines and IC₅₀ values were found to be 110 µg/ml and 140 µg/ml respectively after 48hr of treatment and from this study, we may say that AgNPs have that kind of efficiency to impede cancer.
Keywords	Baccaurea ramiflora ; antioxidant activity ; breast neoplasms ; color ; cytotoxicity ; dose response ; fruits ; humans ; juices ; nanosilver ; neoplasm cells
Language	English
Dates of publication	2022-03
Size	p. 228-235.
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	2126918-X
ISSN	0254-6299
ISSN	0254-6299
DOI	10.1016/j.sajb.2021.09.016
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Synthesis of Carvacrol Derivatives as Potential New Anticancer Agent against Lung Cancer.

Bansal, Anu / Saleh-E-In, Md Moshfekus / Kar, Pallab / Roy, Ayan / Sharma, Neeta Raj

Molecules (Basel, Switzerland)

2022 Volume 27, Issue 14

Abstract: Lung cancer remains a major public health concern among all cancer diseases due to the toxicity and side-effects of the available commercially synthesized drugs. Natural product-derived synthesized anticancer drugs are now of promising interest to fight ... ...

Abstract	Lung cancer remains a major public health concern among all cancer diseases due to the toxicity and side-effects of the available commercially synthesized drugs. Natural product-derived synthesized anticancer drugs are now of promising interest to fight against cancer death. Carvacrol is a major component of most essential oil-bearing plants with potential pharmacological activity, especially against various cancer cell lines. Among the other organometallic compounds, copper complexes have been reported to be effective anticancer agents against various cancer cell lines, especially lung and leukemia cancers, due to the nontoxic nature of copper in normal cells since it is an endogenic metal. In this study, we synthesized three carvacrol derivatives, i.e., carvacrol aldehyde, Schiff base, and copper-Schiff base complex, through an established synthesis protocol and characterized the synthesized product using various spectroscopic techniques. The synthesized derivatives were evaluated for in vitro cytotoxic activity against different cancer cell lines, including human lung cancer (A549) and human fibroblast (BALB-3T3). Our findings showed that the copper-Schiff base complex derived from carvacrol inhibited the proliferation and migration of the A549 cell lines in a dose-dependent manner. This activity might be due to the inhibition of cell proliferation and migration at the G
MeSH term(s)	Antineoplastic Agents/chemistry ; Apoptosis ; Cell Line, Tumor ; Cell Proliferation ; Copper/chemistry ; Cymenes ; Drug Screening Assays, Antitumor ; Humans ; Lung Neoplasms/drug therapy ; Schiff Bases/chemistry
Chemical Substances	Antineoplastic Agents ; Cymenes ; Schiff Bases ; Copper (789U1901C5) ; carvacrol (9B1J4V995Q)
Language	English
Publishing date	2022-07-19
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	1413402-0
ISSN	1420-3049 ; 1431-5165 ; 1420-3049
ISSN (online)	1420-3049
ISSN	1431-5165 ; 1420-3049
DOI	10.3390/molecules27144597
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Cyanobacterial metabolites as promising drug leads against the M

Naidoo, Devashan / Roy, Ayan / Kar, Pallab / Mutanda, Taurai / Anandraj, Akash

Journal of biomolecular structure & dynamics

2020 Volume 39, Issue 16, Page(s) 6218–6230

Abstract: A novel severe acute respiratory syndrome coronavirus (SARS-CoV-2) has emerged as the causative agent behind the coronavirus disease 2019 (COVID-19) pandemic. Treatment efforts have been severely impeded due to the lack of specific effective antiviral ... ...

Abstract	A novel severe acute respiratory syndrome coronavirus (SARS-CoV-2) has emerged as the causative agent behind the coronavirus disease 2019 (COVID-19) pandemic. Treatment efforts have been severely impeded due to the lack of specific effective antiviral drugs for the treatment of COVID-associated pathologies. In the present research endeavour the inhibitory prospects of cyanobacterial metabolites were assessed at the active binding pockets of the two vital SARS-CoV-2 proteases namely, main protease (M
MeSH term(s)	COVID-19 ; Humans ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Pharmaceutical Preparations ; Protease Inhibitors/pharmacology ; SARS-CoV-2
Chemical Substances	Pharmaceutical Preparations ; Protease Inhibitors
Keywords	covid19
Language	English
Publishing date	2020-07-21
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	49157-3
ISSN	1538-0254 ; 0739-1102
ISSN (online)	1538-0254
ISSN	0739-1102
DOI	10.1080/07391102.2020.1794972
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Article ; Online: Structural Insight into the Binding of Cyanovirin-N with the Spike Glycoprotein, M

Naidoo, Devashan / Kar, Pallab / Roy, Ayan / Mutanda, Taurai / Bwapwa, Joseph / Sen, Arnab / Anandraj, Akash

Molecules (Basel, Switzerland)

2021 Volume 26, Issue 17

Abstract: The emergence of COVID-19 continues to pose severe threats to global public health. The pandemic has infected over 171 million people and claimed more than 3.5 million lives to date. We investigated the binding potential of antiviral cyanobacterial ... ...

Abstract	The emergence of COVID-19 continues to pose severe threats to global public health. The pandemic has infected over 171 million people and claimed more than 3.5 million lives to date. We investigated the binding potential of antiviral cyanobacterial proteins including cyanovirin-N, scytovirin and phycocyanin with fundamental proteins involved in attachment and replication of SARS-CoV-2. Cyanovirin-N displayed the highest binding energy scores (-16.8 ± 0.02 kcal/mol, -12.3 ± 0.03 kcal/mol and -13.4 ± 0.02 kcal/mol, respectively) with the spike protein, the main protease (M
MeSH term(s)	Antiviral Agents/pharmacology ; Antiviral Agents/therapeutic use ; Bacterial Proteins/pharmacology ; Bacterial Proteins/therapeutic use ; Bacterial Proteins/ultrastructure ; COVID-19/drug therapy ; COVID-19/virology ; Coronavirus 3C Proteases/antagonists & inhibitors ; Coronavirus 3C Proteases/metabolism ; Coronavirus 3C Proteases/ultrastructure ; Coronavirus Papain-Like Proteases/antagonists & inhibitors ; Coronavirus Papain-Like Proteases/metabolism ; Coronavirus Papain-Like Proteases/ultrastructure ; Coronavirus Protease Inhibitors/pharmacology ; Coronavirus Protease Inhibitors/therapeutic use ; Coronavirus Protease Inhibitors/ultrastructure ; Humans ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Protein Binding ; Protein Interaction Mapping ; Spike Glycoprotein, Coronavirus/antagonists & inhibitors ; Spike Glycoprotein, Coronavirus/metabolism ; Spike Glycoprotein, Coronavirus/ultrastructure ; X-Ray Diffraction
Chemical Substances	Antiviral Agents ; Bacterial Proteins ; Coronavirus Protease Inhibitors ; Spike Glycoprotein, Coronavirus ; spike protein, SARS-CoV-2 ; cyanovirin N (184539-38-6) ; 3C-like proteinase, SARS-CoV-2 (EC 3.4.22.-) ; Coronavirus Papain-Like Proteases (EC 3.4.22.2) ; papain-like protease, SARS-CoV-2 (EC 3.4.22.2) ; Coronavirus 3C Proteases (EC 3.4.22.28)
Language	English
Publishing date	2021-08-24
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	1413402-0
ISSN	1420-3049 ; 1431-5165 ; 1420-3049
ISSN (online)	1420-3049
ISSN	1431-5165 ; 1420-3049
DOI	10.3390/molecules26175114
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Article: Elucidation of phytomedicinal efficacies of Clerodendrum inerme (L.) Gaertn. (Wild Jasmine)

Kar, Pallab / Mishra, Dipu Kumar / Roy, Ayan / Chakraborty, Arnab Kumar / Sinha, Biswajit / Sen, Arnab

SAAB South African journal of botany. 2020 July 25,

2020

Abstract: Clerodendrum inerme is a perennial shrub belonging to the family Lamiaceae and is used in many of the herbal preparations of Siddha and Ayurveda in India. Ethnomedicinally, the leaves of this plant are used to cure various ailments. In spite of enormous ... ...

Abstract	Clerodendrum inerme is a perennial shrub belonging to the family Lamiaceae and is used in many of the herbal preparations of Siddha and Ayurveda in India. Ethnomedicinally, the leaves of this plant are used to cure various ailments. In spite of enormous ethnomedicinal implications, proper chemical profiling and characterization of isolated compounds of C. inerme still remains unaddressed. Present study involves the characterization and chemical profiling of phytoconstituents from leaf extract which promise to be of immense therapeutic significance. Two compounds namely squalene and linolenic acid methyl ester were isolated from the leaves of C. inerme employing column chromatography technique. The structures were elucidated by spectroscopic methods including FTIR, ¹H NMR and ¹³C NMR. Subsequently, antioxidant and antimicrobial activities of the isolated compounds were estimated in-vitro. Pertaining results were validated with in silico molecular docking-based investigations which revealed that both the compounds displayed high binding affinities with the target proteins of the antioxidant pathway commonly targeted for drug development.
Keywords	Ayurvedic medicine ; Clerodendrum inerme ; antimicrobial properties ; antioxidants ; binding capacity ; chemical constituents of plants ; chromatography ; computer simulation ; drug development ; leaves ; linolenic acid ; proteins ; shrubs ; spectroscopy ; squalene ; therapeutics ; India
Language	English
Dates of publication	2020-0725
Publishing place	Elsevier B.V.
Document type	Article
Note	NAL-light ; Pre-press version
ZDB-ID	2126918-X
ISSN	0254-6299
ISSN	0254-6299
DOI	10.1016/j.sajb.2020.07.027
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Synthesis of silver nanoparticles from secondary metabolites of star gooseberry fruit (Phyllanthus acidus) and their nephroprotective efficiency

Banerjee, Swarnendra / Kar, Pallab / Islam, Rejuan / Naidoo, Devashan / Roy, Ayan / Sarkar, Indrani / Sen, Gargi / Saha, Tilak / Yasmin, Hadida / Sen, Arnab

South African Journal of Botany. 2022 Oct. 12,

2022

Abstract: Native people of the Northeast Indian region use a range of underutilized fruits for various purposes. Amongst these, Phyllanthus acidus is very common and well known for its ethnomedicinal values. Despite its ethnopharmacological relevance, a ... ...

Abstract	Native people of the Northeast Indian region use a range of underutilized fruits for various purposes. Amongst these, Phyllanthus acidus is very common and well known for its ethnomedicinal values. Despite its ethnopharmacological relevance, a comprehensive investigation of the clinical effects of this fruit has not yet been executed. Therefore, in the present study nanoparticles were synthesized using secondary metabolites of P. acidus fruit juice, and a comparative study was done to measure the efficacy of raw fruit juice and nanoparticle on gentamicin-induced nephrotoxicity in a mice model. In the present study, gentamicin (negative control) was administered intraperitoneally to induce nephrotoxicity in the mice model. The study also included the control group, positive control group, low dose group (fruit juice and nanoparticle), and high dose group (fruit juice and nanoparticle). Several antioxidant and biochemical tests were performed to measure the efficacy of fruit juice and nanoparticle in preventing renal injury. Results revealed that creatinine and urea levels significantly deteriorated up to 1.13% and 1.49% respectively in the high dose of P. acidus nanoparticle (PANH) group compared to the negative control group. After the application of PANH, three major antioxidant enzymes such as SOD, CAT, and GSH were significantly enhanced compared to the gentamicin-treated group. Histopathological examination revealed that in the PANH group glomerulus structure reappeared significantly. In silico molecular docking, the analysis showed an inhibitory effect of fruit juice and fruit juice synthesized nanoparticles against inflammatory protein, NFƙβ. Findings indicated that PANH was more ameliorative over a high dose of P. acidus fruit juice (PAJH) towards kidney injury. Our findings generate scopes to explore the therapeutic potentials of PANH in treating kidney disorders.
Keywords	Phyllanthus acidus ; antioxidants ; comparative study ; computer simulation ; creatinine ; fruit juices ; fruits ; gentamicin ; gooseberries ; histopathology ; indigenous peoples ; kidneys ; models ; nanoparticles ; nanosilver ; nephroprotective effect ; nephrotoxicity ; raw fruit ; secondary metabolites ; therapeutics ; traditional medicine ; urea ; Catalase ; Histology ; Silver nanoparticles ; Underutilized fruit ; SEM ; FESEM ; EDX ; SOD ; GSH
Language	English
Dates of publication	2022-1012
Publishing place	Elsevier B.V.
Document type	Article ; Online
Note	Pre-press version
ZDB-ID	2126918-X
ISSN	0254-6299
ISSN	0254-6299
DOI	10.1016/j.sajb.2022.10.021
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Natural compounds from

Kar, Pallab / Sharma, Neeta Raj / Singh, Bhupender / Sen, Arnab / Roy, Ayan

Journal of biomolecular structure & dynamics

2020 Volume 39, Issue 13, Page(s) 4774–4785

Abstract: The COVID-19 pandemic caused by the novel coronavirus SARS-CoV-2 has rattled global public health, with researchers struggling to find specific therapeutic solutions. In this context, the present study employed ... ...

Abstract	The COVID-19 pandemic caused by the novel coronavirus SARS-CoV-2 has rattled global public health, with researchers struggling to find specific therapeutic solutions. In this context, the present study employed an
MeSH term(s)	COVID-19 ; Clerodendrum ; Humans ; Molecular Docking Simulation ; Molecular Dynamics Simulation ; Pandemics ; SARS-CoV-2
Keywords	covid19
Language	English
Publishing date	2020-06-19
Publishing country	England
Document type	Journal Article
ZDB-ID	49157-3
ISSN	1538-0254 ; 0739-1102
ISSN (online)	1538-0254
ISSN	0739-1102
DOI	10.1080/07391102.2020.1780947
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Article: Cyanobacterial metabolites as promising drug leads against the Mpro and PLpro of SARS-CoV-2: an in silico analysis

Naidoo, Devashan / Roy, Ayan / Kar, Pallab / Mutanda, Taurai / Anandraj, Akash

J Biomol Struct Dyn

Abstract	A novel severe acute respiratory syndrome coronavirus (SARS-CoV-2) has emerged as the causative agent behind the coronavirus disease 2019 (COVID-19) pandemic. Treatment efforts have been severely impeded due to the lack of specific effective antiviral drugs for the treatment of COVID-associated pathologies. In the present research endeavour the inhibitory prospects of cyanobacterial metabolites were assessed at the active binding pockets of the two vital SARS-CoV-2 proteases namely, main protease (Mpro) and the papain-like protease (PLpro) that proteolytically process viral polyproteins and facilitate viral replication, employing an in silico molecular interaction-based approach. It was evident from our analysis based on the binding energy scores that the metabolites cylindrospermopsin, deoxycylindrospermopsin, carrageenan, cryptophycin 52, eucapsitrione, tjipanazole, tolyporphin and apratoxin A exhibited promising inhibitory potential against the SARS-CoV-2 Mpro. The compounds cryptophycin 1, cryptophycin 52 and deoxycylindrospermopsin were observed to display encouraging binding energy scores with the PLpro of SARS-CoV-2. Subsequent estimation of physicochemical properties and potential toxicity of the metabolites followed by robust molecular dynamics simulations and analysis of MM-PBSA energy scoring function established deoxycylindrospermopsin as the most promising inhibitory candidate against both SARS-CoV-2 proteases. Present research findings bestow ample scopes to further exploit the potential of deoxycylindrospermopsin as a successful inhibitor of SARS-CoV-2 in vitro and in vivo and pave the foundation for the development of novel effective therapeutics against COVID-19. Communicated by Ramaswamy H. Sarma.
Keywords	covid19
Publisher	WHO
Document type	Article
Note	WHO #Covidence: #664851
Database	COVID19

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Article ; Online: Cyanobacterial metabolites as promising drug leads against the Mpro and PLpro of SARS-CoV-2

Naidoo, Devashan / Roy, Ayan / Kar, Pallab / Mutanda, Taurai / Anandraj, Akash

Journal of Biomolecular Structure and Dynamics

an in silico analysis

2020 , Page(s) 1–13

Keywords	Molecular Biology ; Structural Biology ; General Medicine ; covid19
Language	English
Publisher	Informa UK Limited
Publishing country	uk
Document type	Article ; Online
ZDB-ID	49157-3
ISSN	1538-0254 ; 0739-1102
ISSN (online)	1538-0254
ISSN	0739-1102
DOI	10.1080/07391102.2020.1794972
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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